Shadow and Omega, carrying Metal Sonic, flew off Eggman's flying fortress and went into a forest. Omega put Metal Sonic on a log, opened his control panel and started fixing him.
"Will he be OK?" Shadow asked.
"He needs some energy to start him up again" Omega answered.
Shadow looked down to the ground, then at the corner of his eye, he spotted a Chaos Emerald.
"Hey Omega, why don't you use this?"
"Use what?"
Shadow walked up to the Chaos Emerald and picked it up. "A Chaos Emerald"
"Where did it come from?"
"It must of scattered from the sky when Sonic transformed" Shadow said as he gave it to Omega.
"It will take some time for him to power up again"
"How long will it take?"
"It should take 8-10 hours"
"Hmm, we better rest for the night"
Omega and Metal Sonic sat on the log recharging in sleep, but Shadow was lying down on the leaves, awake, staring at the Flying Fortress.
"I need to know. I need to know about my memory."
Shadow used his hover shoes to fly up to Eggman's Ship. Shadow looked around but found no clues around the fortress. He ran around and crashed through a door. Shadow looked around and saw thousands of Shadow clones. He was very confused but ran through the large room until he got to the computer at the back. He was very far away from the door, but he started hacking in.
"The password is M..A..R..I..A. Maria? That seems familiar, why do I still remember that?"
He was about to press the enter key until he heard Eggman's voice through the intercom.
"Shadow clones awaken! Bring havoc to the planet below and make me ruler of it!"
Shadow saw the liquid from the pods drain, so he hovered up to the ceiling to hide. The pods opened up, and all the clones' eyes opened. They all jumped out the pods and walked out the large room.
Shadow jumped back down then looked at the computer screen.
"Oh-No! It lost the password!" Shadow began typing again. "M..A..R..I..-"
A Shadow clone had grabbed him by the neck as the computer flashed 'wrong password'. Shadow was being choked very harshly. He got thrown into the air and got kicked up the back. He hit the floor very hard, but then got hit by several Chaos Spears.
Eggman, who had entered the room in his Egg Mobile, clicked his fingers, and the Shadow clone stopped beating up the weakened hedgehog. Eggman picked up Shadow by the neck, weakening him more by choking him.
"Shadow clone! Go down to Mobius and bring back another clone with you!" Eggman ordered.
"Yes sir!" The Shadow clone immediately went out the room.
"Now Shadow the Hedgehog, time to get rid of you for good!"